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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacttttccacatagtagcttagcacttgaatgcttgttttctgactgataattatttcattttacctgataagttatacatgattttgcagTGTCTCTTCTTTAGCCTTATTTATGTCCAATCAAGAAACTAGCTTTGTTACTCTAGGCCAGCGTGTTCTGGCAAAACCTTTAAA

Basic information

species Vitis vinifera
transcript Vv06s0004g01200.t01
intron # 34
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 34
lower sequence: LOC_Os03g02756.2 (Oryza sativa), 3'ss of exon 3
gtacttttccacatagtagcttagcacttgaatgcttgttttctgact--gataattatttca-ttttacctgataagttatacatgattttgcagTGTCTCTTCTTTAGCCTTATTTATGTCCAATCAAGAAACTAGCTTTGTTACTCTAGGCCAGCGTGTTCTGGCAAAACCTTTAAA
||  | || |||    |   |   || | |  |  ||||    | |||    || | || ||| ||  | || | ||  | |      ||||| ||||| |||||  | ||||  |||||||||||||| |||||||| ||||| ||  | || |||||||||||||| || ||  | ||
gtgttgtttcactagatttttgttcagtcgttttgttgtggctttacttcagtagtcatctcagttcaaacttacaatctctc-----ttttgtagTGTTTCTTCGCTGGCCTCGTTTATGTCCAATCAGGAAACTAGTTTTGTCACATTGGGACAGCGTGTTCTGGCCAATCCACTGAA

upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 34
lower sequence: GLYMA20G38860.1 (Glycine max), 3'ss of exon 39
gtacttttccacatagtagcttagcacttgaatgc--ttgttttctgactgataattatttcattt-tacctg-ataagttatacatgatttt--gcagTGTCTCTTCTTTAGCCTTATTTATGTCCAATCAAGAAACTAGCTTTGTTACTCTAGGCCAGCGTGTTCTGGCAAAACCTTTAAA
          |  |  |   |     |||  ||    |  ||||| ||||     ||  | ||||| |  |||  |||  | |   | | | |  |||||||||| |||||||| | |||||||||||||||||||||||| ||||| ||| | || ||||| ||| | ||||| || || ||
--------gtatgtgctgcttacatcctttgatagtgtccttttcggacttggttttgctgcatttgtggctgtgtaaagtctctgttactgtgtgcagTGTCTCATCTTTAGCATCATTTATGTCCAATCAAGAAACTAGTTTTGTGACTTTGGGGCAGCGAGTTTTAGCAAATCCATTGAA

upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 34
lower sequence: GLYMA10G44150.2 (Glycine max), 3'ss of exon 37
gtacttttccacatagtagcttagcacttgaatgc--ttgttttctgactgataattatttcattt-tacctg-ataagttatacatgatttt--gcagTGTCTCTTCTTTAGCCTTATTTATGTCCAATCAAGAAACTAGCTTTGTTACTCTAGGCCAGCGTGTTCTGGCAAAACCTTTAAA
          |  |  |   |     |||  ||    |  ||||| ||||     ||  | ||||| |  |||  |||  | |   | | | |  |||||||||| ||| |||| | |||||||||||||||||||||||| ||||| ||| |||| ||||| ||| | ||||| || || ||
--------gtatgtgctgcttacatcctttgatagtgtcattttcggacttggttttgctgcatttgtggctgtgtaacatctctgttactgtatgcagTGTCTCATCTCTAGCGTCATTTATGTCCAATCAAGAAACTAGTTTTGTGACTTTAGGGCAGCGAGTTTTAGCAAATCCATTGAA

upper sequence: Vv06s0004g01200.t01 (Vitis vinifera), 3'ss of exon 34
lower sequence: AT3G07160.1 (Arabidopsis thaliana), 3'ss of exon 36
gtacttttccacatagtagcttagcacttgaatgcttgttttctgactgataattatttcattttacctgataagttatacatgattttgcagTGTCTCTTCTTTAGCCTTATTTATGTCCAATCAAGAAACTAGCTTTGTTACTCTAGGCCAGCGTGTTCTGGCAAAACCTTTAAA
             |   | |    ||   | ||   | ||| || | |    || |||  |  |||| |  |  ||| | |   | | ||||||||||| || || || |  || ||||||||||||||||| |||||||| |||||||| || || ||  |||||||||| |||||
------------gtctgaaccagacatgcgtatatctatttacttattttctatcatt--accttacatactt-gttctgcgataatatgcagTGTCTCCTCCTTGGCATCTTTCATGTCCAATCAAGAAACCAGCTTTGTAACTCTAGGTCAACGAGTATTGGCAAAACCCTTAAA

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|30252507|gb|CB970058.1|CB970058
EST:     ATTCGTCCTCCTACCATTCTTGGTGTTCGGGAACATGTCTTCACCGGAAG                         TGTCTCTTCTTTAGCCTTATTTATGTCCAATCAAGAAACTAGCTTTGTTAC
genomic: ATTCGTCCTCCTACCATTCTTGGTGTTCGGGAACATGTCTTCACCGGAAGgtacttttcc ... gattttgcagTGTCTCTTCTTTAGCCTTATTTATGTCCAATCAAGAAACTAGCTTTGTTAC






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctgactgataattatttcattttacctgataagttatacatgattttgcagTGTCTCTTCTTTAGCCTTATTTATGTCCAATCAAGAAACTAGCTTTGTTACTCTAGGCCAGCGTGTTCTGGCAAAACCTTTAAA
       actgataattatttca  TA-rich tract